[R-SIG-Mac] Installing igraph

[Prof Brian Ripley]

On 27/06/2013 14:32, Thomas wrote:
> I've been given an old Mac to run some R programs on and I'm having
> trouble setting up. I just need to get igraph working It's OS X 10.5.6
> and I have installed R 2.15.3 plus the copy of XCode that came on the
> DVD.
>
> For some reason I can't use the package installer. The list of available
> packages appears but I can't install any of them - the full error
> message I get is copied below.
>
> So then I copied the igraph tar.gz file to my machine and in Terminal
> ran R  CMD INSTALL /Users...igraph_0.6.5-2.tar.gz. I get an error
> message saying:
>
> make: gfortran: command not found

Well, you did not install it.  See the 'R Installation and 
Administration Manual' in that version of R.

Hint: see http://cran.r-project.org/bin/macosx/tools/ and you probably 
want the tcltk pkg too.

> Error 127
> compilation failed for package
>
> Any advise would be appreciated.
>
> Thank you!
>
> Thomas Chesney
>
>
> ===================
>
>
> Warning: dependency ‘graph’ is not available

Note that is a Bioconductor package.

> also installing the dependencies ‘rgl’, ‘ape’, ‘XML’, ‘jpeg’, ‘png’
>
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/rgl_0.93.932.tgz'
>
> Content type 'application/x-gzip' length 7832250 bytes (7.5 Mb)
> opened URL
> ======
> downloaded 924 Kb

You or that CRAN mirror has a networking problem.  Try a different mirror.

>
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/ape_3.0-8.tgz'
>
> Content type 'application/x-gzip' length 1466843 bytes (1.4 Mb)
> opened URL
> ==
> downloaded 79 Kb
>
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/XML_3.96-1.1.tgz'
>
> Error in download.file(url, destfile, method, mode = "wb", ...) :
>    cannot open URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/XML_3.96-1.1.tgz'
>
> In addition: Warning messages:
> 1: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 947051 != reported length 7832250
> 2: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 81060 != reported length 1466843
> 3: In download.file(url, destfile, method, mode = "wb", ...) :
>    unable to connect to 'star-www.st-andrews.ac.uk' on port 80.
> Warning in download.packages(pkgs, destdir = tmpd, available =
> available,  :
>    download of package ‘XML’ failed
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/jpeg_0.1-2.tgz'
>
> Content type 'application/x-gzip' length 896337 bytes (875 Kb)
> opened URL
> ===
> downloaded 67 Kb
>
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/png_0.1-4.tgz'
>
> Error in download.file(url, destfile, method, mode = "wb", ...) :
>    cannot open URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/png_0.1-4.tgz'
>
> In addition: Warning messages:
> 1: In download.file(url, destfile, method, mode = "wb", ...) :
>    downloaded length 69513 != reported length 896337
> 2: In download.file(url, destfile, method, mode = "wb", ...) :
>    unable to connect to 'star-www.st-andrews.ac.uk' on port 80.
> Warning in download.packages(pkgs, destdir = tmpd, available =
> available,  :
>    download of package ‘png’ failed
> trying URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/igraph_0.6.5-1.tgz'
>
> Error in download.file(url, destfile, method, mode = "wb", ...) :
>    cannot open URL
> 'http://star-www.st-andrews.ac.uk/cran/bin/macosx/leopard/contrib/2.15/igraph_0.6.5-1.tgz'
>
> In addition: Warning message:
> In download.file(url, destfile, method, mode = "wb", ...) :
>    unable to connect to 'star-www.st-andrews.ac.uk' on port 80.
> Warning in download.packages(pkgs, destdir = tmpd, available =
> available,  :
>    download of package ‘igraph’ failed
>
> gzip: stdin: unexpected end of file
> tar: Unexpected EOF in archive
> tar: Unexpected EOF in archive
> tar: Error is not recoverable: exiting now
> Error: file
> ‘/var/folders/2A/2AFkl9EaGiqnzvUcx24gXU+++TI/-Tmp-//RtmpNmBaq8/downloaded_packages/rgl_0.93.932.tgz’
> is not an OS X binary package
> In addition: Warning message:
> 'tar' returned non-zero exit code 2 This message and any attachment are
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-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595